Results 61 to 70 of about 5,259,649 (407)

Structural analysis of DNA binding by C.Csp231I, a member of a novel class of R-M controller proteins regulating gene expression [PDF]

, 2015
In a wide variety of bacterial restriction–modification systems, a regulatory `controller' protein (or C-protein) is required for effective transcription of its own gene and for transcription of the endonuclease gene found on the same operon.
Kneale, G. G., Mcgeehan, J. E., Shevtsov, M. B., Streeter, S. D., Swiderska, A., Thresh, S.-J.   +5 more
core   +2 more sources

Filtering Degenerate Patterns with Application to Protein Sequence Analysis

Algorithms, 2013
In biology, the notion of degenerate pattern plays a central role for describing various phenomena. For example, protein active site patterns, like those contained in the PROSITE database, e.g., [FY ]DPC[LIM][ASG]C[ASG], are, in general, represented by ...
Matteo Comin, Davide Verzotto
doaj   +1 more source

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

Molecular Systems Biology, 2011
Multiple sequence alignments are fundamental to many sequence analysis methods. Most alignments are computed using the progressive alignment heuristic. These methods are starting to become a bottleneck in some analysis pipelines when faced with data sets
Fabian Sievers, A. Wilm, David Dineen, T. Gibson, K. Karplus, Weizhong Li, R. Lopez, Hamish McWilliam, M. Remmert, J. Söding, J. Thompson, D. Higgins   +11 more
semanticscholar   +1 more source

Folding and Misfolding of Designed Heteropolymer Chains with Mutations

, 1997
We study the impact of mutations (changes in amino acid sequence) on the thermodynamics of simple protein-like heteropolymers consisting of N monomers, representing the amino acid sequence. The sequence is designed to fold into its native conformation on
Broglia, R. A., Roman, H. E., Shakhnovich, E., Tiana, G., Vigezzi, E.   +4 more
core   +2 more sources

Periplakin, a novel component of cornified envelopes and desmosomes that belongs to the plakin family and forms complexes with envoplakin [PDF]

, 1997
The cornified envelope is a layer of transglutaminase cross-linked protein that is assembled under the plasma membrane of keratinocytes in the outermost layers of the epidermis.
Argos, Arnemann, Bernier, Chou, Claros, Duden, Fey, Foisner, Foisner, Garnier, Green, Green, Guo, Haftek, Heid, Huber, Ishida-Yamamoto, Knight, Kouklis, Kozak, Kyte, Lupas, Ma, Maestrini, McLachlan, McLean, Ming, Nicholson, Nikolic, Ouyang, Parrish, Parry, Pasdar, Pasdar, Rice, Robinson, Ruhrberg, Ruhrberg, Sawamura, Sawamura, Schmidt, Sheu, Siefring, Simon, Stappenbeck, Stappenbeck, Stappenbeck, Steinert, Steinert, Sun, Surya, Svitkina, Tang, Uitto, Virata, Wiche, Wiche, Yang   +57 more
core   +2 more sources

MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment

Briefings Bioinform., 2004
With its theoretical basis firmly established in molecular evolutionary and population genetics, the comparative DNA and protein sequence analysis plays a central role in reconstructing the evolutionary histories of species and multigene families ...
Sudhir Kumar, K. Tamura, M. Nei
semanticscholar   +1 more source

Comprehensive analysis of sequences of a protein switch [PDF]

Protein Science, 2015
AbstractSwitches form a special class of proteins that dramatically change their three‐dimensional structures upon a small perturbation. One possible perturbation that we explore is that of a single point mutation. Building on the pioneering experimental work of Alexander et al. (Alexander et al.
Ron Elber, Szu Hua Chen, Jaroslaw Meller
openaire   +3 more sources

Leveraging current insights on IL‐10‐producing dendritic cells for developing effective immunotherapeutic approaches

FEBS Letters, EarlyView.
In vivo IL‐10 produced by tissue‐resident tolDC is involved in maintaining/inducing tolerance. Depending on the agent used for ex vivo tolDC generation, cells acquire common features but prime T cells towards anergy, FOXP3+ Tregs, or Tr1 cells according to the levels of IL‐10 produced. Ex vivo‐induced tolDC were administered to patients to re‐establish/
Konstantina Morali, Gloria Giacomello, Michela Vuono, Silvia Gregori   +3 more
wiley   +1 more source

Protein Structure and Sequence Generation with Equivariant Denoising Diffusion Probabilistic Models [PDF]

arXiv, 2022
Proteins are macromolecules that mediate a significant fraction of the cellular processes that underlie life. An important task in bioengineering is designing proteins with specific 3D structures and chemical properties which enable targeted functions. To this end, we introduce a generative model of both protein structure and sequence that can operate ...
arxiv  

ISLAND: In-Silico Prediction of Proteins Binding Affinity Using Sequence Descriptors [PDF]

BioData Mining, 2020 13:20, 2017
Determination of binding affinity of proteins in the formation of protein complexes requires sophisticated, expensive and time-consuming experimentation which can be replaced with computational methods. Most computational prediction techniques require protein structures which limit their applicability to protein complexes with known structures. In this
arxiv   +1 more source